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When you click the Knit button a document will be generated that includes both content as well as the output of any embedded R code chunks within the document. You can embed an R code chunk like this:
## Warning in eval_tidy(pair$lhs, env = default_env): NAs introduced by
## coercion
## Warning in eval_tidy(pair$lhs, env = default_env): NAs introduced by
## coercion
## Warning in eval_tidy(pair$lhs, env = default_env): NAs introduced by
## coercion
## Warning in eval_tidy(pair$lhs, env = default_env): NAs introduced by
## coercion
## Warning in eval_tidy(pair$lhs, env = default_env): NAs introduced by
## coercion
## Warning in eval_tidy(pair$lhs, env = default_env): NAs introduced by
## coercion
## Warning: `legend.margin` must be specified using `margin()`. For the old
## behavior use legend.spacing
## Loading required package: Rgraphviz
## Loading required package: graph
## Loading required package: BiocGenerics
## Loading required package: parallel
##
## Attaching package: 'BiocGenerics'
## The following objects are masked from 'package:parallel':
##
## clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
## clusterExport, clusterMap, parApply, parCapply, parLapply,
## parLapplyLB, parRapply, parSapply, parSapplyLB
## The following objects are masked from 'package:stats':
##
## IQR, mad, sd, var, xtabs
## The following objects are masked from 'package:base':
##
## anyDuplicated, append, as.data.frame, basename, cbind,
## colMeans, colnames, colSums, dirname, do.call, duplicated,
## eval, evalq, Filter, Find, get, grep, grepl, intersect,
## is.unsorted, lapply, lengths, Map, mapply, match, mget, order,
## paste, pmax, pmax.int, pmin, pmin.int, Position, rank, rbind,
## Reduce, rowMeans, rownames, rowSums, sapply, setdiff, sort,
## table, tapply, union, unique, unsplit, which, which.max,
## which.min
## Loading required package: grid
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